introns

Data license: ODbL · Data source: Larue & Roy, 2023 · About: Minor Intron Database (WtMTA)

id
INTEGER (primary key), globally unique identifier for each intron
dinucleotide_pair
TEXT, terminal dinucleotide sequences of the intron
is_minor
INTEGER, indicates if the intron is a minor intron (1) or not (0)
score
REAL, score representing the probability (0-100%) of the intron being minor
length
INTEGER, length of the intron in base pairs
transcript_id
INTEGER (foreign key referencing transcripts(id)), parent transcript
ordinal_index
INTEGER, ordinal position of the intron within the transcript (e.g., 3 for the third intron)
start
INTEGER, start position of the intron in the genome
end
INTEGER, end position of the intron in the genome
taxonomy_id
INTEGER (foreign key referencing genomes(taxonomy_id)), NCBI taxonomy identifier for species
scored_motifs
TEXT, motifs scored for the intron
phase
INTEGER, phase of the intron in coding sequence (0, 1, or 2 or null for introns outside of coding sequence)
in_cds
INTEGER, indicates if the intron is within the coding sequence (1) or not (0; e.g., UTR introns)
relative_position
REAL, relative position of the intron within the transcript (as a percentage of coding length)

5 rows where transcript_id = 33469708

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Suggested facets: score, phase, in_cds

id ▼ dinucleotide_pair is_minor score length transcript_id ordinal_index start end taxonomy_id scored_motifs phase in_cds relative_position
187538465 GT-AG 0 1.796102783802714e-05 2908 rna-XM_002464150.2 33469708 2 13060705 13063612 Sorghum bicolor 4558 CAG|GTAAATTAAT...TTATTTTTACTT/TTTATTTTTACT...TGCAG|ATA 1 1 6.458
187538466 GT-AG 0 1.000000099473604e-05 77 rna-XM_002464150.2 33469708 3 13063961 13064037 Sorghum bicolor 4558 AAG|GTAAGCCTAC...CAATCCATGTCA/ATCCATGTCATA...TGCAG|ATG 1 1 13.708
187538467 GT-AG 0 1.45773350768335e-05 129 rna-XM_002464150.2 33469708 4 13065360 13065488 Sorghum bicolor 4558 CAG|GTATGACTCA...ACCTTCTCAATA/CACCTTCTCAAT...TTTAG|GTT 0 1 41.25
187538468 GT-AG 0 1.000000099473604e-05 223 rna-XM_002464150.2 33469708 5 13067259 13067481 Sorghum bicolor 4558 GAG|GTAAAATATT...AATTCCTAAATC/CTGAAATTTATA...TCTAG|GAA 0 1 78.125
187558134 GT-AG 0 1.191648713331529 529 rna-XM_002464150.2 33469708 1 13059943 13060471 Sorghum bicolor 4558 ACG|GTATCGTTTT...TTCTGCTTGATG/TTCATGCTAACA...TGTAG|GTA   0 4.312

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CREATE TABLE "introns" (
"id" INTEGER,
  "dinucleotide_pair" TEXT,
  "is_minor" INTEGER,
  "score" REAL,
  "length" INTEGER,
  "transcript_id" INTEGER,
  "ordinal_index" INTEGER,
  "start" INTEGER,
  "end" INTEGER,
  "taxonomy_id" INTEGER,
  "scored_motifs" TEXT,
  "phase" INTEGER,
  "in_cds" INTEGER,
  "relative_position" REAL
  ,PRIMARY KEY ([id]),
   FOREIGN KEY([transcript_id]) REFERENCES [transcripts]([id]),
   FOREIGN KEY([taxonomy_id]) REFERENCES [genomes]([taxonomy_id])
);
CREATE INDEX [idx_introns_transcript_id]
    ON [introns] ([transcript_id]);
CREATE INDEX [idx_introns_taxonomy_id]
    ON [introns] ([taxonomy_id]);
CREATE INDEX [idx_introns_phase]
    ON [introns] ([phase]);
CREATE INDEX [idx_introns_is_minor]
    ON [introns] ([is_minor]);
CREATE INDEX [idx_introns_dinucleotide_pair]
    ON [introns] ([dinucleotide_pair]);
CREATE INDEX [idx_introns_score]
    ON [introns] ([score]);
CREATE INDEX [idx_introns_in_cds]
    ON [introns] ([in_cds]);